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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGAGAGATTTTAGAAGAAGATGGGATTGGTGATGTTTTGATGAAGACGGCAGATTCCGACGGCGAATCAGGCGAAATCAAATTTGAAGATAATAATCTGgtctgttctaatccctctaatacgtctttttcttcctaaattctgtttggattgtgggatcagaggggtggatttgggtttgattgattttttcatatta...

Basic information

species Arabidopsis thaliana
transcript AT3G25840.1
intron # 1
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|124975327|gb|EL048832.1|EL048832
EST:     TTCCGACGGCGAATCAGGCGAAATCAAATTTGTAAGATAATAATCTG                         CCTCCACTTGGGGAAAAAGGGCGTCAAGGAGAAGAAAAGAGTTCTAATGGT
genomic: TTCCGACGGCGAATCAGGCGAAATCAAATTTG-AAGATAATAATCTGgtctgttcta ... atgctttcagCCTCCACTTGGGGAAAAAGGGCGTCAAGGAGAAGAAAAGAGTTCTAATGGT
EST: gi|164192160|gb|ES191504.1|ES191504
EST:     CAGATTCCGACGGCGAATCAGGCGAAATCAAATTTGAAGATAATAATCTG                         CCTCCACTTGGGGAAAAAGGGCGTCAAGGAGAAGAA
genomic: CAGATTCCGACGGCGAATCAGGCGAAATCAAATTTGAAGATAATAATCTGgtctgttcta ... atgctttcagCCTCCACTTGGGGAAAAAGGGCGTCAAGGAGAAGAA
EST: gi|164223872|gb|ES030556.1|ES030556
EST:     ATCAGGCGAAATCAAATTTGAAGATAATAATCTG                         CCTCCACTTGGGGAAAAAGGGCGTCAAGGAGAAGAAAAGAGTTCTAATGGT
genomic: ATCAGGCGAAATCAAATTTGAAGATAATAATCTGgtctgttcta ... atgctttcagCCTCCACTTGGGGAAAAAGGGCGTCAAGGAGAAGAAAAGAGTTCTAATGGT
EST: gi|125236163|gb|EL250248.1|EL250248
EST:     TCAAATTTGAAGATAATAATCTG                         CCTCCACTTGGGGAAGAAGGGCGTCAAGGAGAAGAAAAGAGTTCTAATGGT
genomic: TCAAATTTGAAGATAATAATCTGgtctgttcta ... atgctttcagCCTCCACTTGGGGAAAAAGGGCGTCAAGGAGAAGAAAAGAGTTCTAATGGT
EST: gi|164111441|gb|ES039242.1|ES039242
EST:     CAGATTCCGACGGCGAATCAGGCGAAATCAAATTTGAAGATAATAATCTG                         CCTCCACTTGGGGAAAA-GGGCGTCAAGGAGAAGAAAAGAG
genomic: CAGATTCCGACGGCGAATCAGGCGAAATCAAATTTGAAGATAATAATCTGgtctgttcta ... atgctttcagCCTCCACTTGGGGAAAAAGGGCGTCAAGGAGAAGAAAAGAG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGAGAGATTTTAGAAGAAGATGGGATTGGTGATGTTTTGATGAAGACGGCAGATTCCGACGGCGAATCAGGCGAAATCAAATTTGAAGATAATAATCTGgtctgttctaatccctctaatacgtctttttcttcctaaattctgtttggattgtgggatcagaggggtggatttgggtttgattgattttttcatatta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atccctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctttttc